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[189250_at] cytochrome c

Description ZC116.2 /REP_DB=WormBase Gene ID /WP=CE06565 /TR=SW:Q23240 /GB=CAA98555.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=cytochrome c
Cluster 6grp_total > 98      4grp_total > 10      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 63
1 2 3 4 range
A 3.8
(-3)
A 		6.5
(-2.7)
A 		4.6
(-2.9)
A 		65
(3)
A 		61
B 5.5
(-0.7)
A 		11
(3)
A 		2
(-3)
A 		6.9
(0.3)
A 		9
C 6.7
(-2.3)
A 		9.9
(-1.9)
A 		1.8
(-3)
A 		45.3
(3)
A 		44
avr 5.3
(-2.6) 		9.1
(-2) 		2.8
(-3) 		39.1
(3) 		36

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 279
1 2 3 4 5 6 range
A 5.6
(-3)
A 		8
(-2.9)
A 		4.5
(-3)
A 		61.8
(-1.8)
A 		175.3
(0.7)
P 		283.2
(3)
P 		279
B 9.3
(-2.9)
A 		8.3
(-2.9)
A 		4
(-3)
A 		46.7
(-1.9)
A 		201.9
(2.2)
P 		230.9
(3)
P 		227
C 7.3
(-3)
A 		10.6
(-2.9)
A 		16.2
(-2.7)
A 		10.8
(-2.9)
A 		151.2
(1.1)
P 		216.7
(3)
P 		209
avr 7.4
(-3) 		9
(-3) 		8.2
(-3) 		39.8
(-2.2) 		176.1
(1.3) 		243.6
(3) 		236
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 9
1 2 3 4 range
A 1.4
(-2.9)
A 		1.4
(-2.9)
A 		1.2
(-3)
A 		9.5
(3)
A 		8
B 1.8
(0.5)
A 		2.7
(3)
A 		0.5
(-3)
A 		1.5
(-0.3)
A 		2
C 2.2
(-1.6)
A 		2.8
(-1.1)
A 		0.6
(-3)
A 		7.6
(3)
A 		7
avr 1.8
(-1.9) 		2.3
(-1.3) 		0.8
(-3) 		6.2
(3) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 85
1 2 3 4 5 6 range
A 1
(-3)
A 		2.8
(-2.8)
A 		1
(-3)
A 		15.7
(-1.7)
A 		52.9
(1.6)
P 		69
(3)
P 		68
B 3.2
(-2.8)
A 		2.8
(-2.9)
A 		1
(-3)
A 		12.4
(-2.2)
A 		82
(2.7)
P 		86.1
(3)
P 		85
C 2.7
(-3)
A 		3.2
(-2.9)
A 		4.1
(-2.8)
A 		2.2
(-3)
A 		48.9
(1)
P 		72.6
(3)
P 		70
avr 2.3
(-3) 		2.9
(-2.9) 		2
(-3) 		10.1
(-2.3) 		61.3
(1.8) 		75.9
(3) 		74
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189250_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13189
Sequence Type Exemplar sequence
Representative Public ID ZC116.2 NCBI
Target Description ZC116.2 /REP_DB=WormBase Gene ID /WP=CE06565 /TR=SW:Q23240 /GB=CAA98555.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=cytochrome c
Cluster Evidence This cluster is supported by a Sanger Annotation.
Annotation Method Description
Annotation Description This probe set was annotated using the Matching Probes based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_073755(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073755 NCBI Caenorhabditis elegans ZC116.2 (ZC116.2) mRNA, complete cds. 11/11 None
SNAP00000043952 ENSEMBL cdna:SNAP chromosome:CEL140:V:12614336:12614806:-1 11/11 None
GENEFINDER00000043955 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:12614336:12614806:-1 11/11 None
ZC116.2 ENSEMBL cdna:known chromosome:CEL140:V:12614318:12614806:-1 gene:ZC116.2 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:12614335-12614806(-) 100.0 100.0
Public Domain and Genome References
Gene Title cytochrome c
Ensembl ZC116.2
Entrez Gene 179728 Entrez gene
SwissProt Q23240 EMBL-EBI
WormBase CE06565 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:19624_AT cytochrome c, putative at
ATH1-121501:255011_AT cytochrome c, putative at
MOUSE430A_2:1450752_AT cytochrome c, testis mm
MOE430A:1450752_AT cytochrome c, testis mm
MOUSE430_2:1450752_AT cytochrome c, testis mm
MU11KSUBB:MSA.574.0_AT cytochrome c, testis mm
MU11KSUBB:X55771_S_AT cytochrome c, testis mm
MG-U74AV2:92929_AT cytochrome c, testis mm
RG-U34A:M20623_AT cytochrome c, testis rn
RAE230A:1387534_AT cytochrome c, testis rn
RAT230_2:1387534_AT cytochrome c, testis rn
RAE230A:1369321_S_AT cytochrome c, testis rn
RAT230_2:1369321_S_AT cytochrome c, testis rn
YEAST_2:1773548_AT Cytochrome c, isoform 1; electron carrier of the mitochondrial intermembrane space that transfers electrons from ubiquinone-cytochrome c oxidoreductase to cytochrome c oxidase during cellular respiration Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6118 electron transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5746 mitochondrial electron transport chain inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5489 electron transporter activity inferred from electronic annotation QuickGO AmiGO
20037 heme binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA98555 Hypothetical protein ZC116.2 [Caenorhabditis elegans] ref|NP_506156.1| ZC116.2 [Caenorhabditis elegans] sp|Q23240|CYC2_CAEEL Probable cytochrome c 3.0E-66
blast CAE63947 Hypothetical protein CBG08529 [Caenorhabditis briggsae] 5.0E-64
blast AAB92035 Hypothetical protein E04A4.7 [Caenorhabditis elegans] ref|NP_500629.1| E04A4.7 [Caenorhabditis elegans] 1.0E-45
Protein Domains
Database ID Description E-Value
scop a.3.1.monodomain cytochrome c All alpha proteins; Cytochrome c; Cytochrome c; monodomain cytochrome c 1.40129846432482E-45
Pfam IPR003088 EMBL-EBI Cytochrome c, class I 1.5E-25
Sequence
Target Sequence 
>C. ELEGANS:189250_AT
gtctgatacggcatccggtggagctattccagaaggagacaatgagaaaggaaagaagat
cttcaaacaacgttgcgagcaatgtcacgttgtcaactcattgcaaacaaagactggacc
aacattgaacggagtgattggaagacaatccggacaagttgctggatttgactactcggc
tgccaacaagaataaaggagttgtatgggacagacaaacacttttcgactatttggctga
tccgaaaaagtacatccccggaactaagatggtcttcgctggtttgaagaaagctgacga
acgagctgatctcatca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTCTGATACGGCATCCGGTGGAGCT 50 471 27 Antisense
GTTGCGAGCAATGTCACGTTGTCAA 352 439 98 Antisense
TCACGTTGTCAACTCATTGCAAACA 292 623 111 Antisense
GAAGACAATCCGGACAAGTTGCTGG 616 339 167 Antisense
AGTTGCTGGATTTGACTACTCGGCT 687 63 183 Antisense
GACTACTCGGCTGCCAACAAGAATA 658 371 196 Antisense
GGGACAGACAAACACTTTTCGACTA 336 493 233 Antisense
ACTTTTCGACTATTTGGCTGATCCG 401 101 246 Antisense
GCTGATCCGAAAAAGTACATCCCCG 542 293 262 Antisense
CTAAGATGGTCTTCGCTGGTTTGAA 697 225 290 Antisense
GCTGACGAACGAGCTGATCTCATCA 384 295 319 Antisense
Sequence Source Affymetrix Proprietary Database